globalchange  > 过去全球变化的重建
DOI: 10.1371/journal.pone.0102458
论文题名:
The Expanded Diversity of Methylophilaceae from Lake Washington through Cultivation and Genomic Sequencing of Novel Ecotypes
作者: David A. C. Beck; Tami L. McTaggart; Usanisa Setboonsarng; Alexey Vorobev; Marina G. Kalyuzhnaya; Natalia Ivanova; Lynne Goodwin; Tanja Woyke; Mary E. Lidstrom; Ludmila Chistoserdova
刊名: PLOS ONE
ISSN: 1932-6203
出版年: 2014
发表日期: 2014-7-24
卷: 9, 期:7
语种: 英语
英文关键词: Comparative genomics ; Genomic databases ; Genome analysis ; Nitrates ; Ribosomal RNA ; Lakes ; Phylogenetics ; Nitrogen metabolism
英文摘要: We describe five novel Methylophilaceae ecotypes from a single ecological niche in Lake Washington, USA, and compare them to three previously described ecotypes, in terms of their phenotype and genome sequence divergence. Two of the ecotypes appear to represent novel genera within the Methylophilaceae. Genome-based metabolic reconstruction highlights metabolic versatility of Methylophilaceae with respect to methylotrophy and nitrogen metabolism, different ecotypes possessing different combinations of primary substrate oxidation systems (MxaFI-type methanol dehydrogenase versus XoxF-type methanol dehydrogenase; methylamine dehydrogenase versus N-methylglutamate pathway) and different potentials for denitrification (assimilatory versus respiratory nitrate reduction). By comparing pairs of closely related genomes, we uncover that site-specific recombination is the main means of genomic evolution and strain divergence, including lateral transfers of genes from both closely- and distantly related taxa. The new ecotypes and the new genomes contribute significantly to our understanding of the extent of genomic and metabolic diversity among organisms of the same family inhabiting the same ecological niche. These organisms also provide novel experimental models for studying the complexity and the function of the microbial communities active in methylotrophy.
URL: http://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0102458&type=printable
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资源类型: 期刊论文
标识符: http://119.78.100.158/handle/2HF3EXSE/20016
Appears in Collections:过去全球变化的重建
影响、适应和脆弱性
科学计划与规划
气候变化与战略
全球变化的国际研究计划
气候减缓与适应
气候变化事实与影响

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作者单位: Department of Chemical Engineering, University of Washington, Seattle, Washington, United States of America;eScience Institute, University of Washington, Seattle, Washington, United States of America;Department of Chemical Engineering, University of Washington, Seattle, Washington, United States of America;Department of Chemical Engineering, University of Washington, Seattle, Washington, United States of America;Department of Chemical Engineering, University of Washington, Seattle, Washington, United States of America;Department of Microbiology, University of Washington, Seattle, Washington, United States of America;DOE Joint Genome Institute, Walnut Creek, California, United States of America;Los Alamos National Laboratory, Los Alamos, New Mexico, United States of America;DOE Joint Genome Institute, Walnut Creek, California, United States of America;Department of Chemical Engineering, University of Washington, Seattle, Washington, United States of America;Department of Microbiology, University of Washington, Seattle, Washington, United States of America;Department of Chemical Engineering, University of Washington, Seattle, Washington, United States of America

Recommended Citation:
David A. C. Beck,Tami L. McTaggart,Usanisa Setboonsarng,et al. The Expanded Diversity of Methylophilaceae from Lake Washington through Cultivation and Genomic Sequencing of Novel Ecotypes[J]. PLOS ONE,2014-01-01,9(7)
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